BLASTP 2.2.18 [Mar-02-2008] Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs", Nucleic Acids Res. 25:3389-3402. Reference for compositional score matrix adjustment: Altschul, Stephen F., John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis, Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109. Query= 0256.0022.p (189 letters) Database: pfamseq 9,421,015 sequences; 3,060,696,203 total letters Searching..................................................done Score E Sequences producing significant alignments: (bits) Value B3K777.1 B3K777_9BACI Regulatory protein TetR 277 3e-73 Q92AU2.1 Q92AU2_LISIN Lin1827 protein 123 7e-27 Q71YV0.1 Q71YV0_LISMF Transcriptional regulator, TetR family 121 3e-26 Q4EEJ5.1 Q4EEJ5_LISMO Transcriptional regulator, TetR family 120 5e-26 C1KW15.1 C1KW15_LISMC Putative transcription regulator 120 6e-26 >B3K777.1 B3K777_9BACI Regulatory protein TetR Length = 189 Score = 277 bits (709), Expect = 3e-73, Method: Compositional matrix adjust. Identities = 132/177 (74%), Positives = 155/177 (87%) Query: 1 MNKFEIRTQTKKDAIVAAALRLFQEKGFTHVSIKDIAAESGVSSVSLYNYFGNKEGVVRE 60 MNKFE+RTQ KKDAIV AAL+LF+EKGF HVSIKDIA ESGVSSVSLYNYFG+KEGVV+E Sbjct: 1 MNKFEVRTQQKKDAIVQAALKLFKEKGFVHVSIKDIAEESGVSSVSLYNYFGSKEGVVKE 60 Query: 61 CANVLMQNSVRKAKELLGQNIGFKDKMLRALEICADQDYQLLSSPGAVEDQVLSSLYNEN 120 CANVLMQN++R A ELL Q+I FKDK+ R L ICADQDYQLL +PGAVEDQVL+SLY+E+ Sbjct: 61 CANVLMQNTIRMAMELLNQDIEFKDKLSRVLAICADQDYQLLCTPGAVEDQVLASLYSES 120 Query: 121 TNRIRVEIIQEFIGQGKSEGVIDASVSMDTILELLCAIGPLQSSWAKTENYKDKMAE 177 TN+IR+E+IQEFI GK EG I +SVS++T+LELL A+G LQ+SWA+ NY DKMAE Sbjct: 121 TNKIRLELIQEFIELGKKEGAIHSSVSLETLLELLNAVGTLQASWARAGNYNDKMAE 177 >Q92AU2.1 Q92AU2_LISIN Lin1827 protein Length = 191 Score = 123 bits (309), Expect = 7e-27, Method: Compositional matrix adjust. Identities = 70/165 (42%), Positives = 106/165 (64%), Gaps = 5/165 (3%) Query: 1 MNKFEIRTQTKKDAIVAAALRLFQEKGFTHVSIKDIAAESGVSSVSLYNYFGNKEGVVRE 60 MN +E RT KK AI AAL LF + GF+ VSIKDIA+ +GVS VS+YNYFGNKE +V E Sbjct: 1 MNNYEKRTLKKKTAITHAALTLFGKAGFSEVSIKDIASLAGVSQVSIYNYFGNKEALVAE 60 Query: 61 CANVLMQNSVRKAKELLGQNIGFKDKMLRALEIC-ADQDYQL---LSSPGAVEDQVLSSL 116 CA V+MQ+++ A+E+L F +K+ RA+++C A+ + L +S+ + + Q ++ L Sbjct: 61 CAKVIMQDTISLAEEILVSEGTFTEKLTRAIQLCHAEINVSLSKFISTEASKDSQFITLL 120 Query: 117 YNENTNRIRVEIIQEFIGQGKSEGVIDASVSMDTILELLCAIGPL 161 N N N+++ +I E++ GK VI+ +S D I + +I L Sbjct: 121 VN-NINKLKNDIYMEYVAAGKKAKVINNDISDDVIQLFIDSINGL 164 >Q71YV0.1 Q71YV0_LISMF Transcriptional regulator, TetR family Length = 194 Score = 121 bits (303), Expect = 3e-26, Method: Compositional matrix adjust. Identities = 72/165 (43%), Positives = 107/165 (64%), Gaps = 5/165 (3%) Query: 1 MNKFEIRTQTKKDAIVAAALRLFQEKGFTHVSIKDIAAESGVSSVSLYNYFGNKEGVVRE 60 MN +E RT KK AI+ AAL LF E+GF+ VSIKDIAA + VS VS+YNYFG+KE +V E Sbjct: 1 MNNYEKRTLKKKTAIIQAALSLFGEQGFSDVSIKDIAALADVSQVSIYNYFGSKESLVGE 60 Query: 61 CANVLMQNSVRKAKELLGQNIGFKDKMLRALEIC-ADQDYQL---LSSPGAVEDQVLSSL 116 CA+++MQ+++ A+E+L F K+ RAL++C A+ + L +S + + Q ++ L Sbjct: 61 CASIIMQDTITLAEEILASEGTFTQKLERALQLCNAEINLSLSKFISQEASKDAQFITLL 120 Query: 117 YNENTNRIRVEIIQEFIGQGKSEGVIDASVSMDTILELLCAIGPL 161 N N N ++ EI ++I GK E +ID+ +S +I + AI L Sbjct: 121 VN-NINVLKNEIYMKYIAIGKQEKIIDSRLSDQSIQLFIEAINGL 164 >Q4EEJ5.1 Q4EEJ5_LISMO Transcriptional regulator, TetR family Length = 194 Score = 120 bits (302), Expect = 5e-26, Method: Compositional matrix adjust. Identities = 72/165 (43%), Positives = 106/165 (64%), Gaps = 5/165 (3%) Query: 1 MNKFEIRTQTKKDAIVAAALRLFQEKGFTHVSIKDIAAESGVSSVSLYNYFGNKEGVVRE 60 MN +E RT KK AI+ AAL LF E+GF+ VSIKDIAA + VS VS+YNYFG+KE +V E Sbjct: 1 MNNYEKRTLKKKTAIIQAALSLFGEQGFSDVSIKDIAALADVSQVSIYNYFGSKEALVGE 60 Query: 61 CANVLMQNSVRKAKELLGQNIGFKDKMLRALEIC-ADQDYQL---LSSPGAVEDQVLSSL 116 CA+++MQ+++ A+E+L F K+ RAL++C A+ + L +S + + Q ++ L Sbjct: 61 CASIIMQDTITLAEEILASEGTFTQKLERALQLCNAEINLSLSKFISQEASKDAQFITLL 120 Query: 117 YNENTNRIRVEIIQEFIGQGKSEGVIDASVSMDTILELLCAIGPL 161 N N N ++ EI ++I GK E +ID +S +I + AI L Sbjct: 121 VN-NINALKNEIYMKYIAIGKQEKIIDNRLSDQSIQLFIEAINGL 164 >C1KW15.1 C1KW15_LISMC Putative transcription regulator Length = 191 Score = 120 bits (301), Expect = 6e-26, Method: Compositional matrix adjust. Identities = 71/165 (43%), Positives = 107/165 (64%), Gaps = 5/165 (3%) Query: 1 MNKFEIRTQTKKDAIVAAALRLFQEKGFTHVSIKDIAAESGVSSVSLYNYFGNKEGVVRE 60 MN +E RT KK AI+ AAL LF E+GF+ VSIKDIA+ + VS VS+YNYFG+KE +V E Sbjct: 1 MNNYEKRTLKKKTAIIQAALSLFGEQGFSDVSIKDIASLADVSQVSIYNYFGSKEALVGE 60 Query: 61 CANVLMQNSVRKAKELLGQNIGFKDKMLRALEIC-ADQDYQL---LSSPGAVEDQVLSSL 116 CA+++MQ+++ A+E+L F K+ RAL++C A+ + L +S + + Q ++ L Sbjct: 61 CASIIMQDTITLAEEILASEGTFTQKLERALQLCNAEINLSLSKFISQEASKDAQFITLL 120 Query: 117 YNENTNRIRVEIIQEFIGQGKSEGVIDASVSMDTILELLCAIGPL 161 N N N ++ EI ++I GK E +ID+ +S +I + AI L Sbjct: 121 VN-NINVLKNEIYMKYIAIGKQEKIIDSRLSDQSIQLFIEAINGL 164 Database: pfamseq Posted date: Aug 5, 2010 3:22 PM Number of letters in database: 3,060,696,203 Number of sequences in database: 9,421,015 Lambda K H 0.315 0.131 0.356 Gapped Lambda K H 0.267 0.0410 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 9421015 Number of Hits to DB: 947,776,289 Number of extensions: 34501740 Number of successful extensions: 126272 Number of sequences better than 1.0e-05: 330 Number of HSP's gapped: 126602 Number of HSP's successfully gapped: 330 Length of query: 189 Length of database: 3,060,696,203 Length adjustment: 128 Effective length of query: 61 Effective length of database: 1,854,806,283 Effective search space: 113143183263 Effective search space used: 113143183263 Neighboring words threshold: 11 Window for multiple hits: 40 X1: 16 ( 7.3 bits) X2: 38 (14.6 bits) X3: 64 (24.7 bits) S1: 41 (21.6 bits) S2: 127 (53.5 bits)